Standard name
Human Ortholog
Description Rpd3L histone deacetylase complex subunit; key transcriptional regulator of early meiotic genes; involved in chromatin remodeling and transcriptional repression via DNA looping; binds URS1 upstream regulatory sequence, represses transcription by recruiting conserved histone deacetylase Rpd3p (through co-repressor Sin3p) and chromatin-remodeling factor Isw2p; couples metabolic responses to nutritional cues with initiation and progression of meiosis

Micrographs

ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud 0 0 0 0 0 0 0 0 0.05 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Neck 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 0.05 0.06 0.08 0.05 0.07 0 0 0 0 0 0
Cell Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0 0 0 0.06 0.05 0.07 0.05 0.06 0.05 0.06 0.07 0.09 0.15 0.09 0.08 0.09 0 0 0 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0.05 0.06 0.05 0.06 0 0.18 0.26 0.47 0.57 0.55 0.42 0.07 0 0 0.07 0.05 0.1 0 0 0 0 0 0
Nucleus 0.92 0.92 0.93 0.93 0.91 0.85 0.82 0.78 0.82 0.71 0.78 0.92 0.89 0.82 0.85 0.85 0.84 0.87 0.86 0.83 0.74 0.73 0.66
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0.08 0 0 0 0 0 0 0.08 0.12 0.15 0.13 0 0 0 0 0 0 0.05 0 0 0.07 0.09 0.11
Peroxisomes 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.06 0.09 0.13 0.11 0.13
ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 1 0 0 1 1
Bud 0 0 0 0 0 0 2 3 10 4 4 0 0 0 0 1 1 3 2 1 4 4 10
Bud Neck 0 0 1 0 0 0 2 0 2 2 0 0 0 0 0 0 0 0 0 0 0 2 4
Bud Site 0 1 1 1 6 7 18 12 17 10 11 2 0 0 0 0 2
Cell Periphery 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 6 7 10 12 16 18 25 10 12 9 9 29 40 82 33 29 26 0 0 0 1 0 1
Endoplasmic Reticulum 1 2 0 0 0 0 1 0 0 0 0 0 0 0 7 7 11 0 0 0 0 2 3
Endosome 0 3 1 1 0 0 0 1 0 0 0 1 1 1 5 2 3 4 4 0 2 4 5
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 5 0 0 2 1
Mitochondria 19 22 15 15 10 71 94 91 122 107 68 29 12 12 25 18 30 2 1 2 2 2 5
Nucleus 348 343 308 249 244 327 302 153 174 138 124 402 409 448 320 322 242 338 340 284 274 314 287
Nuclear Periphery 0 0 2 0 2 2 1 2 1 2 0 3 5 4 1 4 5 1 0 0 0 1 1
Nucleolus 29 15 5 6 3 11 16 15 25 30 21 10 16 19 6 10 8 20 10 12 26 38 48
Peroxisomes 1 1 0 0 0 1 0 0 0 0 0 1 1 1 0 0 0 0 0 0 1 0 0
SpindlePole 1 1 7 4 4 4 13 0 1 4 2 1 6 4 0 2 4 0 3 4 0 6 5
Vac/Vac Membrane 4 6 4 2 3 2 2 1 4 2 0 1 3 8 6 13 11 12 24 29 46 46 56
Unique Cell Count 377 372 330 268 268 386 367 195 213 194 160 437 459 547 377 379 288 387 396 344 370 433 438
Labelled Cell Count 410 401 354 290 288 443 476 288 368 308 239 480 493 579 403 408 344 387 396 344 370 433 438


Nucleus

(Huh et al. Nature 2003 425:686)
Screen WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 AF100 AF140 AF180
Mean Cell GFP Intensity (1e-4) 5.9 6.4 6.1 5.7 6.1 4.9 5.0 4.8 4.3 4.3 4.7 5.7 5.7 5.5 8.4 8.9 7.9 5.4 5.4 5.6
Std Deviation (1e-4) 0.8 1.2 1.2 1.4 1.4 1.3 1.3 1.6 1.4 1.4 1.7 1.2 1.2 1.4 2.2 2.8 2.2 1.2 1.3 1.4
Intensity Change (Log2) -0.09 0.01 -0.3 -0.28 -0.34 -0.49 -0.5 -0.38 -0.1 -0.1 -0.13 0.46 0.56 0.37 -0.16 -0.16 -0.12


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Neck 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Site 0 0 0 3.7 0 0 0 0 0 0 0 0 0 0
Cell Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0.9 1.8 1.1 2.3 1.2 1.5 1.0 1.4 2.3 3.2 5.6 3.2 2.7 3.2
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 3.6
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mitochondria 0.6 -0.5 5.7 7.6 0 0 0 0 1.2 -1.5 -2.0 1.2 0.1 2.8
Nucleus -0.2 -1.0 -3.6 -4.4 -5.0 -4.2 -6.9 -5.1 -0.7 -2.0 -4.8 -3.6 -3.5 -3.7
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0 0 1.2 2.2 0 0 0 0 0.8 1.7 1.7 0.1 1.0 1.1
Peroxisomes 0 0 0 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 0 0 -1.2 1.1 0 0 0 0 0 -0.9 0 0 0 -0.7
Vacuole 0 0 0 0 0 0 0 0 0 0 0 0 1.9 2.1

Images

Circle plot not available

Protein Concentration and Protein Localization Data

R1 R2 R3
G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase
Concentration 4.3594 3.8119 4.0624 3.4688 3.5932 4.0291 2.6987 2.2871 1.7404 2.4529 2.2925 1.8319 2.2259 2.2733 1.8083 1.8756 1.6658 1.7902
Actin 0.0136 0.0002 0.0141 0.0424 0.0147 0.0051 0.0214 0.006 0.0019 0.0286 0.0022 0.0022 0.0003 0 0 0 0 0.0001
Bud 0.0005 0.0001 0.0008 0.0008 0.0002 0.0002 0.0015 0.0001 0.0002 0.0007 0.0012 0.0001 0 0 0 0 0 0
Bud Neck 0.0124 0.0003 0.0025 0.0295 0.0033 0.0025 0.0113 0.0002 0.0001 0.0012 0.0014 0.0014 0.0002 0.0001 0 0 0.0003 0.0005
Bud Periphery 0.0014 0.0001 0.0014 0.001 0.0003 0.0007 0.0031 0.0001 0.0004 0.0015 0.0036 0.0002 0 0 0 0 0.0001 0
Bud Site 0.0116 0.001 0.0098 0.0136 0.0003 0.0003 0.0066 0.0004 0.0008 0.0041 0.0018 0.0001 0.0001 0 0 0 0.0001 0.0001
Cell Periphery 0.0009 0.0001 0.0005 0.0005 0.0001 0.0002 0.0005 0 0.0001 0.0005 0.0004 0.0001 0 0 0 0 0 0
Cytoplasm 0.0189 0.003 0.002 0.0027 0.001 0.0036 0.007 0.0019 0.0003 0.0089 0.0013 0.0002 0.0013 0.0002 0.0001 0.0001 0.0007 0.0002
Cytoplasmic Foci 0.0362 0.0002 0.0027 0.0342 0.0013 0.0005 0.0058 0.003 0.0012 0.0054 0.0012 0.0011 0.0003 0 0 0 0 0.0005
Eisosomes 0.0003 0 0.0002 0.0003 0.0001 0.0001 0.0002 0.0001 0 0.0005 0.0001 0.0002 0 0 0 0 0 0
Endoplasmic Reticulum 0.0103 0.0006 0.0028 0.0021 0.0038 0.0041 0.0087 0.0001 0.0003 0.0081 0.0036 0.0004 0.0005 0 0 0 0 0
Endosome 0.025 0.0013 0.0094 0.021 0.0167 0.0039 0.032 0.0022 0.0048 0.0348 0.0209 0.0018 0.0009 0 0 0 0 0.0003
Golgi 0.0064 0.0002 0.0027 0.0073 0.0035 0.0023 0.0056 0.0023 0.0012 0.0248 0.0034 0.003 0.0001 0 0 0 0 0
Lipid Particles 0.0218 0 0.0028 0.0252 0.0027 0.0008 0.0047 0.0006 0.0009 0.0122 0.0041 0.0003 0.0007 0 0 0 0 0.0001
Mitochondria 0.0026 0.0004 0.0095 0.0076 0.0021 0.0162 0.0103 0.0003 0.0072 0.0214 0.0504 0.001 0.0005 0 0 0 0.0001 0.0001
None 0.0278 0.0001 0.0011 0.0052 0.0021 0.0004 0.0041 0.0007 0.0002 0.0047 0.0008 0.0002 0.0058 0 0.0003 0 0.0181 0.0003
Nuclear Periphery 0.0114 0.0016 0.0038 0.0029 0.0367 0.0043 0.0246 0.0013 0.0014 0.0093 0.0271 0.0026 0.0061 0.0016 0.0014 0.0005 0.0007 0.0013
Nucleolus 0.0287 0.0155 0.0165 0.0126 0.0502 0.0408 0.0204 0.0139 0.0113 0.0086 0.0546 0.0298 0.0095 0.0138 0.0084 0.0069 0.0237 0.0297
Nucleus 0.7033 0.9712 0.9015 0.7592 0.8468 0.9035 0.807 0.9621 0.9656 0.8134 0.7735 0.9532 0.9694 0.9832 0.9815 0.9921 0.9542 0.962
Peroxisomes 0.0224 0 0.0018 0.0103 0.0004 0.0004 0.0016 0.0007 0.0003 0.001 0.0005 0.0002 0.0001 0 0 0 0 0
Punctate Nuclear 0.0385 0.0033 0.0073 0.0154 0.0112 0.0041 0.0138 0.0038 0.0007 0.0034 0.0341 0.0012 0.0037 0.0008 0.0079 0.0003 0.0016 0.0048
Vacuole 0.0049 0.0009 0.0055 0.005 0.0006 0.0034 0.0066 0.0001 0.0005 0.0045 0.008 0.0003 0.0003 0.0001 0 0 0.0001 0.0001
Vacuole Periphery 0.001 0.0002 0.0012 0.0011 0.0018 0.0026 0.0032 0.0001 0.0004 0.0024 0.0061 0.0004 0.0002 0 0 0 0 0

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 13.4026 12.5703 7.5788 11.7647 8.2612 13.1756 14.4971 13.2695 13.7132 14.2743
Translational Efficiency 1.0609 1.5136 1.6942 0.9566 1.7358 0.9725 0.961 1.1385 0.9678 0.9941

Hit Data

Dataset Hit
Protein Concentration
Protein Localization
Gene Expression
Translational Efficiency

Micrographs

Cell Count

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
1098 402 833 1217 1663 1542 2285 1015 2761 1944 3118 2232

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 689.84 786.85 1011.94 916.36 717.69 768.57 934.99 942.08 706.61 772.35 955.55 928.06
Standard Deviation 86.94 150.39 154.53 142.95 120.51 111.71 126.56 149.96 109.26 120.96 138.84 146.74
Intensity Change Log 2 0.189827 0.552790 0.409653 0.098816 0.381590 0.392489 0.144139 0.468035 0.400926

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.000229 0.000935 0.001144 0.001332 0.000317 0.000380 0.000577 0.001200 0.000282 0.000495 0.000728 0.001272
Bud Neck 0.006971 0.007802 0.028164 0.042232 0.005213 0.010732 0.033746 0.032208 0.005912 0.010126 0.032254 0.037674
Bud Site 0.000664 0.003461 0.002083 0.011711 0.000726 0.001387 0.001966 0.009942 0.000701 0.001816 0.001998 0.010906
Cell Periphery 0.000102 0.000289 0.000151 0.000241 0.000115 0.000123 0.000097 0.000154 0.000110 0.000157 0.000111 0.000201
Cytoplasm 0.004459 0.011667 0.002428 0.015452 0.007261 0.006109 0.002568 0.012110 0.006147 0.007258 0.002530 0.013932
Cytoplasmic Foci 0.000162 0.004025 0.000147 0.002815 0.002038 0.000983 0.000234 0.006329 0.001292 0.001612 0.000211 0.004413
Eisosomes 0.000016 0.000034 0.000048 0.000039 0.000019 0.000024 0.000035 0.000038 0.000018 0.000026 0.000038 0.000038
Endoplasmic Reticulum 0.001938 0.005690 0.003876 0.006821 0.001534 0.003438 0.003569 0.005300 0.001695 0.003904 0.003651 0.006129
Endosome 0.000275 0.002378 0.000222 0.009942 0.000428 0.001343 0.000597 0.013169 0.000367 0.001557 0.000497 0.011410
Golgi 0.000075 0.001676 0.000130 0.005049 0.000297 0.000568 0.000186 0.010342 0.000208 0.000797 0.000171 0.007456
Lipid Particles 0.000118 0.001559 0.000132 0.001509 0.000268 0.000983 0.000077 0.001213 0.000208 0.001102 0.000092 0.001374
Mitochondria 0.001434 0.002398 0.001742 0.007449 0.000826 0.004175 0.001734 0.008842 0.001068 0.003807 0.001736 0.008083
Mitotic Spindle 0.001626 0.008555 0.002663 0.035134 0.001232 0.003120 0.007818 0.043749 0.001389 0.004244 0.006441 0.039051
None 0.011153 0.025329 0.003614 0.013481 0.023416 0.006659 0.002781 0.009146 0.018539 0.010520 0.003004 0.011510
Nuclear Periphery 0.000386 0.000761 0.000359 0.005432 0.000318 0.000986 0.001252 0.002564 0.000345 0.000939 0.001013 0.004128
Nuclear Periphery Foci 0.000229 0.001333 0.000107 0.002228 0.000233 0.000623 0.000598 0.001773 0.000231 0.000770 0.000467 0.002021
Nucleolus 0.031245 0.029021 0.024567 0.013797 0.024259 0.033156 0.013492 0.009409 0.027037 0.032301 0.016451 0.011802
Nucleus 0.938283* 0.888722* 0.926481* 0.806143* 0.930264* 0.920789* 0.926628* 0.809367* 0.933453* 0.914158* 0.926589* 0.807609*
Peroxisomes 0.000181 0.000972 0.000554 0.000933 0.000564 0.000709 0.000145 0.000881 0.000411 0.000764 0.000254 0.000909
Vacuole 0.000245 0.002069 0.001165 0.013890 0.000579 0.002325 0.001418 0.014144 0.000446 0.002272 0.001350 0.014005
Vacuole Periphery 0.000210 0.001324 0.000222 0.004370 0.000094 0.001388 0.000484 0.008119 0.000140 0.001375 0.000414 0.006075

Localization Changes (T-score)

R1 R2 R1 & R2
UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14
Actin -6.08 -19.65 -12.77 -3.32 -0.85 -0.43 -2.69 -7.93 -12.64 -10.24 -2.58 -7.42 -12.33 -12.79 -9.15
Bud Neck -1.31 -13.16 -15.25 -14.05 -3.97 -6.36 -21.01 -13.81 -10.59 0.24 -5.93 -24.29 -20.80 -16.90 -2.39
Bud Site -2.79 -9.73 -7.46 -3.69 -5.30 -2.66 -5.77 -5.82 -5.20 -4.72 -4.00 -9.47 -9.42 -7.69 -7.46
Cell Periphery -1.90 -0.89 -3.68 1.10 -1.24 -0.25 1.11 -0.58 -0.41 -3.42 -1.62 0.61 -2.47 0.01 -3.92
Cytoplasm -2.93 2.18 -5.11 -0.39 -7.29 1.09 4.28 -0.60 -1.55 -4.14 -0.58 4.71 -3.46 -2.61 -8.21
Cytoplasmic Foci -2.06 0.78 -3.68 1.38 -3.81 2.15 3.59 0.17 -2.15 -3.81 0.10 3.61 -0.32 -0.44 -5.17
Eisosomes -5.18 -18.50 -15.55 -1.43 3.60 -2.38 -9.17 -10.38 -9.15 -3.95 -5.61 -17.59 -16.85 -9.65 -2.41
Endoplasmic Reticulum -6.56 -10.06 -14.28 -2.85 -7.96 -8.31 -16.66 -15.51 -8.37 -8.05 -10.13 -18.82 -20.82 -10.10 -11.75
Endosome -2.72 0.13 -3.92 -1.82 -3.93 -2.90 -0.27 -4.32 -3.49 -4.29 -4.10 -0.49 -5.76 -4.16 -5.70
Golgi -1.80 -7.01 -2.69 -0.65 -2.55 -1.06 0.75 -3.09 -2.81 -3.22 -2.17 0.34 -4.03 -3.07 -4.11
Lipid Particles -1.59 -1.11 -1.64 0.62 -1.57 -2.12 2.70 -1.56 0.88 -2.47 -2.75 2.52 -2.04 0.82 -2.49
Mitochondria -1.10 -0.94 -4.69 -4.76 -6.35 -3.31 -2.73 -5.14 -1.14 -4.23 -3.25 -2.26 -7.55 -2.15 -7.28
Mitotic Spindle -1.96 -2.17 -7.69 -4.31 -6.10 -1.75 -4.32 -7.34 -6.78 -5.67 -2.51 -4.76 -10.70 -9.20 -8.24
None -2.51 5.08 1.58 3.13 -3.72 5.91 7.68 6.00 0.55 -2.77 3.87 9.05 5.95 2.10 -5.01
Nuclear Periphery -2.64 -1.95 -6.66 -5.89 -6.48 -4.38 -5.11 -4.23 -2.84 -2.32 -4.78 -5.23 -7.91 -6.21 -5.93
Nuclear Periphery Foci -2.43 1.22 -3.64 -0.27 -4.07 -2.12 -0.95 -3.16 -0.98 -2.08 -3.04 -0.69 -4.75 -1.60 -3.90
Nucleolus 0.37 1.08 8.30 5.19 6.92 -4.35 7.19 8.00 10.86 2.01 -3.00 6.99 11.46 12.24 5.12
Nucleus 4.67 4.66 13.38 4.52 10.14 1.64 1.14 9.13 8.05 9.00 4.10 3.27 15.63 11.30 14.20
Peroxisomes -3.95 -9.17 -2.39 1.61 0.91 -0.61 2.43 0.65 1.67 -3.18 -2.14 1.30 -0.44 1.93 -2.30
Vacuole -2.92 -8.42 -8.53 -7.03 -7.80 -2.88 -2.74 -7.38 -6.20 -6.71 -3.89 -4.32 -11.19 -9.32 -10.16
Vacuole Periphery -1.71 -0.67 -3.19 -1.06 -3.14 -3.75 -3.13 -3.30 -1.91 -3.00 -4.04 -2.94 -4.57 -2.15 -4.18
Standard name
Human Ortholog
Description Rpd3L histone deacetylase complex subunit; key transcriptional regulator of early meiotic genes; involved in chromatin remodeling and transcriptional repression via DNA looping; binds URS1 upstream regulatory sequence, represses transcription by recruiting conserved histone deacetylase Rpd3p (through co-repressor Sin3p) and chromatin-remodeling factor Isw2p; couples metabolic responses to nutritional cues with initiation and progression of meiosis
Localization
Cell Percentages nucleus (99%)
Cell Cycle Regulation No
Subcompartmental Group nucleus-4

Ume6

Ume6


Nearest neighbours ( genes)

correlation threshold

0.6

1.0

0.80


Biological Process (Gene Ontology)

Molecular Function (Gene Ontology)

Cellular Component (Gene Ontology)


Endocytosis
Temp Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Vph1-GFP)
37℃
RT
Cell Cycle Omics

CYCLoPs (Ume6-GFP)
Gene / Allele Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Sac6-tdTomato)
Gene Images
Gene Images
Images are not yet available
Images are not yet available